Thalassiosira pseudonana CCMP1335 chromosome 3, whole genome shotgun sequence.
Eukaryota; Stramenopiles; Bacillariophyta; Coscinodiscophyceae; Thalassiosirophycidae; Thalassiosirales; Thalassiosiraceae; Thalassiosira.
The Phaeodactylum genome reveals the evolutionary history of diatom genomes
The genome of the diatom Thalassiosira pseudonana: ecology, evolution, and metabolism
Submitted (15-JUN-2017) National Center for Biotechnology Information, NIH, Bethesda, MD 20894, USA
Submitted (18-SEP-2008) US DOE Joint Genome Institute, 2800 Mitchell Drive B100, Walnut Creek, CA 94598-1698, USA
PROVISIONAL REFSEQ: This record has not yet been subject to final\nNCBI review. The reference sequence is identical to CM000640.\nURL -- http://www.jgi.doe.gov/thalassiosira\nJGI Project ID: 2662235\nContacts: E. Virginia Armbrust (armbrust@u.washington.edu)\n Igor Grigoriev (ivgrigoriev@lbl.gov)\nThe clone of P. pseudonana that was sequenced is CCMP1335 and is\navailable from the Center for Culture of Marine Phytoplankton\n(http://ccmp.bigelow.org). This clone was collected in 1958 from\nMoriches Bay (Long Island, New York) and has been maintained\ncontinuously in culture.\nAnnotation was done by the JGI Annotation team and the Diatom\nConsortium.\nChromosomes 7 and 18 are complete and present in GenBank records\nCP001160 and CP001159, respectively.\nThe JGI and collaborators endorse the principles for the\ndistribution and use of large scale sequencing data adopted by the\nlarger genome sequencing community and urge users of this data to\nfollow them. It is our intention to publish the work of this\nproject in a timely fashion and we welcome collaborative\ninteraction on the project and analysis.\n(http://www.genome.gov/page.cfm?pageID=10506376)\nAnnotated scaffolds were added in January 2009.\n\n##Genome-Annotation-Data-START##\nAnnotation Provider :: INSDC submitter\nAnnotation Status :: Full annotation\nAnnotation Pipeline :: Eukaryotic Annotation Propagation Pipeline\n##Genome-Annotation-Data-END##
Contains homology to mitochondrial/peroxisomal membrane carrier protein
Putative protein of unknown function containing a papain cysteine protease domain, similar to gi|18402228|ref|NP_566634.1| (NM_112827) cysteine proteinase; protein id: At3g19400.1 [Arabidopsis thaliana] (model%: 90, hit%: 15, score: 130, %id: 44) [Arabidopsis thaliana]; putative protein of unknown function containing a papain cysteine protease domain
Phototropin is a blue light photoreceptor identified in plants. They are protein kinases containing PAS domains and flavin binding sites.; pas-domain protein with similarity to blue light photoreceptor phototropin (NPH1)
Similarity to known genes ranges from low to very high. An enzyme of the cysteine metabolism pathway.
presence of pcna domains and goodsequence similarity to other pcna-like proteins. No EST support
based on sequence similarity to bacterial proteins; hypothetical protein
DNA Repair, Nucleotide excision repair, helicase, ATP dependent DNA helicase
Some hits to MFS transporters, but the support isn't strong. This gene also contains InterPro domain #001865, which is characteristic of the ribosomal protein S2.; unknown function
Similar to iron reductase from Arabadopsis (FRO-1 and FRO-2) involved in iron acquisition. Supported by EST data.
No reasonable similarity to any known sequences. Partial cDNA support.; unknown protein
contains a mitochondrial energy transfer protein domain; partial EST support
microsomal omega-6 fatty acid desaturase
membrane bound fatty acid desaturase, introduces a double bond at the omega-6 position.
contains integral membrane protein domain; supported by cDNAs; hypothetical protein with distant similarity to unknown proteins
based on sequence similarity and presence of multiple defining domains, and EST support from Phaeodactylum; C reductase
Heavy metal transporter, specificity unknown.
14-3-3-like protein (model%: 94, hit%: 94, score: 923, %id: 79) [Fucus vesiculosus]
Retinal 3',5'-cGMP phosphodiesterase (PDE) is located in photoreceptor outer segments : it is light activated, playing a pivotal role in signal transduction. In rod cells, PDE is oligomeric, comprising an alpha-, a beta- and 2 gamma-subunits, while in cones, PDE is a homodimer of alpha chains, which are associated with several smaller subunits. Both rod and cone PDEs catalyse the hydrolysis of cAMP or cGMP to the corresponding nucleoside 5' monophosphates, both enzymes also binding cGMP with high affinity. The cGMP-binding sites are located in the N-terminal half of the protein sequence, while the catalytic core resides in the C-terminal portion.
Belongs to the glycosyl hydrolase family 18 (IPR001223) and chitinase family 18 and 2 (IPR001579). Also contains similarity to Pfam model #00704 for glycosyl hydrolases family 18. No EST support, but reasonable hits to other chitinases.
RM4, ribosomal protein 4, mitochondrial large ribosomal subunit, nuclear encoded, translation, protein biosynthesis
strong cDNA support; protein of unknown function, contains distant similarity to unknown proteins
Histone H2A is a small, highly conserved nuclear protein that, together with 2 molecules each of histones H2B, H3 and H4, forms the eukaryotic nucleosome core; the nucleosome octamer winds 146 DNA base-pairs.
Histone H2B is one of the four histones, along with H2A, H3 and H4, which forms the eukaryotic nucleosome core. Histone H2B is a small, highly conserved nuclear protein that, together with 2 molecules each of histones H2A, H3 and H4, forms the eukaryotic nucleosome core; the nucleosome octamer winds 146 DNA base-pairs.
Histone H3 is one of the four histones, along with H2A, H2B and H4, which forms the eukaryotic nucleosome octomer core; the nucleosome octamer winds 146 DNA base-pairs. It is a highly conserved protein of 135 amino acid residues. Model Quality
Histone H4 is one of the four histones, along with H2A, H2B and H3, which forms the eukaryotic nucleosome core. Along with H3, it plays a central role in nucleosome formation. The sequence of histone H4 has remained almost invariant in more then 2 billion years of evolution.
Guanylate cyclases catalyze the formation of cyclic GMP(cGMP) from GTP. cGMP acts as an intracellular messenger, activating cGMP-dependent kinases and regulating CGMP-sensitive ion channels. The role of cGMP as a second messenger in vascular smooth muscle relaxation and retinal photo-transduction is well established. Guanylate cyclase is found both in the soluble and particular fraction of eukaryotic cells. The soluble and plasma membrane-bound forms differ in structure, regulation and other properties. Most currently known plasma membrane-bound forms are receptors for small polypeptides. The soluble forms of guanylate cyclase are cytoplasmic heterodimers having alpha and beta subunits.
One of four component proteins of the enzyme glycine decarboxylase. Functions with serine hydroxymethyltransferase to produce one serine from two glycine. This reaction is part of the photorespiratory pathway (glycolate metabolism). Reaction occurs in the mitochondria.
Eukaryotic protein kinases are enzymes that belong to a very extensive family of proteins which share a conserved catalytic core common with both serine/threonine and tyrosine protein kinases. There are a number of conserved regions in the catalytic domain of protein kinases. In the N-terminal extremity of the catalytic domain there is a glycine-rich stretch of residues in the vicinity of a lysine residue, which has been shown to be involved in ATP binding. In the central part of the catalytic domain there is a conserved aspartic acid residue which is important for the catalytic activity of the enzyme.; putative protein kinase
HSF29, Contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor; HSF29, contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor
CATALYTIC ACTIVITY: ATP + L-leucine + tRNA(Leu) = AMP + diphosphate + L-leucyl-tRNA(Leu)
Serine/threonine (S/T) phosphatases catalyse the dephosphorylation of phosphoserine and phosphothreonine residues; contains conserved serine/threonine protein phosphatase.
supported by a cDNA; with sequence similarity to yeast supressor protein SRP40; putative protein of unknown function, weakly
similar to Skp1-like protein of ubiquitin protein degradation pathway (model%: 89, hit%: 87, score: 271, %id: 38) [unidentified]; putative protein similar to SKP1 component of ubiquitin protein degradation pathway
Good hits to other ABC transporters and Interpro.Function unknown. Less conserved than some other ABC transporters in T.p.
The FYVE zinc finger is named after four proteins that it has been found in: Fab1, YOTB/ZK632.12, Vac1, and EEA1. The FYVE finger has been shown to bind two Zn2+ ions. The FYVE finger has eight potential zinc coordinating cysteine positions. Many members of this family also include two histidines in a motif R+HHC+XCG, where + represents a charged residue and X any residue.; hypothetical protein with FYVE zn-finger, rabphilin/VPS27/FAB1 type
Putative protein of unknown function with similarities to acid phosphatases; e.g. At3g52780-68298.m04991 F3C22.180 purple acid phosphatase-like protein purple acid phosphatase precursor, Phaseolus vulgaris, EMBL:PVPAPHOSP (model%: 62, hit%: 62, score: 359, %id: 31) [Arabidopsis thaliana]; EST support; putative protein of unknown function with similarity to acid phosphatases
Putative protein of unknown function containing a cysteine protease inhibitor domain, very strong EST support; putative protein of unknown function containing a cysteine protease inhibitor domain
Function unknown but presumably transfers sulfate from phosphoadenosine phosphosulfate to substrate.; hypothetical protein with sulfotransferase domain
Putative N-acetyl transferase; similar to At2g38130-68297.m03999 F16M14.6 putative acetyltransferase (model%: 89, hit%: 76, score: 326, %id: 48) [Arabidopsis thaliana]; EST support
Putative protein of unknown function, with some similarities to cyclophilin-type peptidyl-prolyl cis-trans isomerase; possible involvement in xenobiotic degradation; putative protein of unknown function, with some similarity to cyclophilin-type peptidyl-prolyl cis-trans isomerase
Contains InterPro domain #IPR002068 for HSP20 proteins. Also contains similarity to Pfam model #PF00011 for HSP20/alpha crystallin family proteins. Had reasonable similarity to higher plants. Probably cytoplasmic.; HSP20 family
contains bipartite plastid targeting presequence with conserved motif at signal peptide cleavage site
involved in N-glycan biosynthesistransfers core-oligosaccharide to specific N-glycosylation sites of nascent proteins on the luminal side of the endopasmic reticulumno EST data
Presumably transfers sulfate from phosphoadenosine phosphosulfate to substrate; hypothetical protein with a sulfotransferase domain
Fucoxanthing chlorophyll a/c protein, member of LHC superfamily; FCP6
fucoxanthin chlorophyll a/c light-harvesting protein, major type
[CATALYTIC ACTIVITY] Acyl-[acyl-carrier protein] + NAD(+) = trans-2,3-dehydroacyl-[acyl-carrier protein] + NADH. [PATHWAY] Fatty acid biosynthesis pathway; second reduction step.
based on sequence similarity to growth arrest 11 and presence of myc type helix-loop-helix dimerization domain; putative protein with similarity to growth arrest 11
Has distant similarity to acyl-CoA thioester hydrolase; hypothetical gene
TPS_130147, homolog to catecholamine-O-methyltransferase
Has EST support; Alternative splicing variant 1
succinoaminoimidazolecarboximide ribonucleotide synthetase
Has EST support; Alternative splicing variant 2
Catalyzes the reaction: ATP + 5-amino-1-(5-phospho-D-ribosyl)imidazole-4-carboxylate + L-aspartate = ADP + phosphate + (S)-2-[5-amino-1-(5-phospho-D-ribosyl)imidazole-4- carboxamido]succinate; Contains conserved SAICAR synthetase domain (IPR001636); 62% amino acid identity to other organisms; Strong supporting EST data.; Alternative splicing variant 2
Clp/HSP104 proteins are involved in protein degradation, chaperone function and heat shock response. The given gene by similarity seems to be involved in heat shock response. It is ost similar to higher plant HSP104 proteins. At least 6 more regulative subunits are in the T. pseudonana genome.
member of the clp superfamily, regulatory gamma subunit
Clp proteins are involved in protein degradation, chaperone function and heat shock response. The given gene by similarity seems to be involved in protein degradation. It is ost similar to cyanobacterial gamma subunits. At least 6 more regulative subunits are in the T. pseudonana genome.
Serine/threonine (S/T) phosphatases catalyse the dephosphorylation of phosphoserine and phosphothreonine residues; contains conserved serine/threonine protein phosphatase.; hypothetical protein containing serine threonine phophatase domain
based on sequence similarity to hypothetical proteins from metazoans and presence of Kringle domains found in serine proteases; hypothetical protein of unknown function with kringle domains
myristoyl-CoA:protein N-myristoyltransferase
Presumably attaches myristic acid to N-terminal Gly residues of proteins or peptides following removal of the initiator Met.
This gene was identified by sequence similarity and contains InterPro domains IPR004046 and IPR004045. IPR004046 is a glutathione S-transferase, C-terminal domain (GST_C) and IPR004045 is a glutatione S-transferase, N-terminal domain (GST_N). In eukaryotes, GSTs participate in the detoxification of reactive electrophilic compounds by catalysing their conjugation to glutathione.
Supported by cDNA. putative ATP-dependant RNA helicase
Most similar to other hypothetical proteins. There is no EST support for this gene.; hypothetical protein containing the zinc-containing alcohol dehydrogenase superfamily motif
DNA topoisomerase IV, ATP/GTP binding site
Removing the tortional constrains on DNA
based on sequence similarity to bacterial proteins
Regulator of G Protein Signaling (RGS) proteins function as GTPase-activating proteins (GAPs) that stimulate the inactivation of heterotrimeric G proteins and are responsible for the rapid turnoff of G protein-coupled receptor signaling pathways; putative protein kinase containing cyclic nucleotide binding domain and a regulator of G-protein signaling domain
Contains putative domains for cyclic nucleotide binding, cation channel
supported by presence of HEAT domain and T. pseudonana ESTs; putative protein of unknown function that contains heat domain
AP50 IS THE MEDIUM SUBUNIT OF THE PLASMA MEMBRANE CLATHRIN ADAPTOR COMPLEX
putative adenylate kinase based on presence of defining domains and sequence similarity.
Metabolism; Carbohydrate Metabolism; Pyruvate metabolism. Catalyzes the reaction: (S)-lactate + 2 ferricytochrome c = pyruvate + 2 ferrocytochrome c
Putative protein of unknown function with similarities to pseudouridylate synthase; EST support; putative protein of unknown function with similarity to pseudouridylate synthase
Putative protein of unknown function, containing a rhodanese domain; such domains are associated with plant senescence proteins; similarities to gi|23272598|gb|AAH35604.1| (BC035604) Similar to PP4189 [Homo sapiens] (model%: 74, hit%: 52, score: 404, %id: 34) [Homo sapiens]; EST support; putative protein of unknown function, containing a rhodanese domain
Hydroxypyruvate reductase uses NADH to produce glycerate from hydroxypyruvate.
putative REV1 protein - involved in DNA repair
Contains InterPro domain #IPR001902 for sulphate transporters, #IPR002645 for sulfate transporter/antisigma-factor antagonist (STAS), and #IPR001687 for ATP/GTP-binding site motif A (P-loop). It is also similar to Pfam model #PF00916 for sulfate transporter family proteins. Good hits to other sulfate permeases and transporters (E values of 0). Belongs to the sulfate permease subfamily of transporters (TC#2.A.53).
based on sequence similarity to human ADP ribosylation factor protein 2 and EST support from T. weissflogii
Membrane alanine aminopeptidase releases an N-terminal amino acid from a peptide, amide, or arylamide. The N-terminal amino acid removed is preferably alanine, but may be most amino acids. It is a metalloprotease that requires zinc as a cofactor. This protein was identified based on sequence similarity.
catalyzes the reaction, L-ornithine = L-proline + NH3. Involved in the urea cycle and the metabolism of amino groups.
RS15B, ribosomal protein 15B 40S small ribosomal subunit
RS15B, ribosomal protein 15B, 40S small ribosomal subunit, nuclear, translation, protein biosynthesis
formate/nitrite transporter family member
This protein has EST support and good similarity to other nitrite transporters (evalues = 0). Contains similarity to Pfam model #PF01226 for formate/nitrite transporters. Also contains InterPro domain #IPR000292 (formate and nitrite transporters), #IPR001678 (ATP/GTP-binding site motif A), #IPR001023 (heat shock protein hsp70). The similarity to other nitrite transporters begins around amino acid #55 of this protein, and the hsp70 domain is located within this 55 amino acid stretch. Initially I thought that this gene was the result of two genes that were incorrectly merged (one that was a nitrite transporter and one that was a hsp70 protein), however, the whole protein has EST support.
electron transfer flavoprotein ubiquinone oxidoreductase
Putative protein of unknown function with similarities to 4-nitrophenylphosphatase; e.g. Best Hit (Plasmodium): gi|23498821|emb|CAD50898.1| (AL844506) 4-nitrophenylphosphatase, putative [Plasmodium falciparum 3D7] (model%: 70, hit%: 77, score: 327, %id: 32); putative protein of unknown function with similarity to 4-nitrophenylphosphatase
mitochondrial manganese superoxide dismutase
Superoxide dismutase that belongs to the Mn/Fe binding superoxide dismutase family. Superoxide dismutases catalyse the conversion of superoxide radicals to molecular oxygen.
Protein phosphatase 2C (PP2C) is one of the four major classes of mammalian serine/threonine specific protein phosphatases; shows broad substrate specificity and is dependent on divalent cations; putative protein phosphatase
putative adenylate-kinase-like protein based on sequence similarity and EST support
eukaryotic translation initiation factor eIF4G
transporter belonging to the MFS superfamily
Hits to other permeases and MFS transporters. The best hit was to NC_000853 permease, putative from Thermotoga maritima (e value= 0) with 32% identity.
D-fructose 1,6-bisphosphate = glycerone phosphate + D-glyceraldehyde 3-phosphate; putative
strong hits to other sugar transporters and pfam.EST in TP.
based on sequence similarity to metazoan proteins, EST support, and presence of C2, aldehyde dehydrogenase and cytochrome domains; putative protein
based on presence of defining domains and sequence similarity
HSF11, Contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor; HSF11, contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor
RT15, ribosomal protein 15 mitochondrial small ribosomal subunit
RT15, ribosomal protein 15, mitochondrial small ribosomal subunit, nuclear encoded, translation, protein biosynthesis
Reaction catalyzed:ATP + 3-phospho-D-glycerate = ADP + 3-phospho-D-glyceroyl phosphate; putative
desaturates fatty acids at the delta-5 position, similar to other front end desaturases, contains a cytochrome b5 N-termal fusion and histidine-box catalytic sites.
The aldo-keto reductase family includes a number of related monomeric NADPH-dependent oxidoreductases, such as aldehyde reductase, aldose reductase, prostaglandin F synthase, xylose reductase, rho crystallin, and many others. All possess a similar structure, with a beta-alpha-beta fold characteristic of nucleotide binding proteins. The fold comprises a parallel beta-8/alpha-8-barrel, which contains a novel NADP-binding motif. The binding site is located in a large, deep, elliptical pocket in the C-terminal end of the beta sheet, the substrate being bound in an extended conformation. The hydrophobic nature of the pocket favours aromatic and apolar substrates over highly polar ones.
based on presence of leucine-rich repeats including ribonuclease inhibitor types; putative protein with leucine-rich repeats including those of ribonuclease inhibitor type
RL24, ribosomal protein 24 60S large ribosomal subunit
RL24, ribosomal protein 24, 60S large ribosomal subunit, nuclear, translation, protein biosynthesis
histone acetyl transferase, gcn5-related
The yeast GCN5 (yGCN5) transcriptional coactivator functions as a histone acetyltransferase(HAT) to promote transcriptional activation. Shows homolgy to genes involved in controlof amino acod synthesis.
catalyzes the transfer of mannose from Dol-P-Man to lipid-linked oligosaccharides; Alg9p
One of 22 hits of a hypothetical DNA helicase from the Gtheta nucleomorph, no EST support; fragment of hypothetical DNA helicase
involved in intracellular vesicle traffic; subunit of protein complex that coats golgi vesicles
Serine/threonine (S/T) phosphatases catalyse the dephosphorylation of phosphoserine and phosphothreonine residues; contains conserved serine/threonine protein phosphatase. The metallo-phosphoesterase motif is found in a large number of proteins invoved in phosphoryation. These include serine/threonine phosphatases, DNA polymerase, exonucleases, and other phosphatases.; hypothetical protein containing a metallophosphoesterase domain
This ATPase is involved in the removal of arsenate, antimonite, and arsenate from the cell.
1-acyl-sn-glycerol-3-phosphate acyltransferase
Acyl-ACP + 1-acyl-sn-glycerol 3-phosphate = ACP + 1,2-diacyl-sn-glycerol 3-phosphate.
[CATALYTIC ACTIVITY] (3R)-3-hydroxyacyl-[acyl-carrier protein] + NADP(+) = 3-oxoacyl-[acyl-carrier protein] + NADPH. [PATHWAY] Fatty acid biosynthesis pathway; first reduction step. [SIMILARITY] BELONGS TO THE SHORT-CHAIN DEHYDROGENASES/REDUCTASES (SDR) FAMILY.
based on sequence similarity and presence of hemolysin III domain
Protein kinases comprise a large family of enzymes that mediate the response of eukaryotic cells to external stimuli by phosphorylation of hydroxyamino acids; putative protein kinase
RL17, ribosomal protein 17-like 60S large ribosomal subunit
RL17, ribosomal protein 17-like, 60S large ribosomal subunit, nuclear, translation, protein biosynthesis
branched-chain amino acid aminotransferase
Sequence similarity is strong in about half of the gene.
Putative trypsin-like serine protease, similar ot gi|3319320|gb|AAC39131.1| (AF074956) midgut-specific serine protease 2 [Stomoxys calcitrans] (model%: 50, hit%: 74, score: 305, %id: 39) [Stomoxys calcitrans]
contains a CRALBP/TRIO domain, present in several lipid-transfer proteins and proteins with diverse functions; phosphatidylinositol/phosphatidylcholine transfer protein) (PI/PC TP
hypothetical protein with thioredoxin type domains
Putative protein with similarities to mandelate racemase (involved in benzoate degradation), similar to gi|22989769|gb|ZP_00034822.1| (NZ_AAAC01000308) hypothetical protein [Burkholderia fungorum] (model%: 99, hit%: 90, score: 974, %id: 52) [Burkholderia fungorum]; Strong EST support; putative protein with similarity to mandelate racemase
Identification based on similarity to known sequences.
Putative protein of unknown function containing a subtilisin-like serine protease domain, similar to At4g00230-68296.m00024 F6N15.3 subtilisin-like serine protease XSP1 identical to subtilisin-type serine endopeptidase XSP1 GI:6708179 from [Arabidopsis thaliana] (model%: 54, hit%: 50, score: 153, %id: 19) [Arabidopsis thaliana]; putative protein of unknown function containing a subtilisin-like serine protease domain
similar to ubiquitin-conjugating-like enzyme, Ahus5; protein id: At3g57870.1, gi_1174161, gi_14596100 [Arabidopsis thaliana] (model%: 91, hit%: 90, score: 526, %id: 61) [Arabidopsis thaliana]; EST support; E2
Serine/threonine (S/T) phosphatases catalyse the dephosphorylation of phosphoserine and phosphothreonine residues
probable S-adenosylmethionine synthetase
Good sequence similarity to known genes; methionine adenosyltransferase 1
Excellent agreement with known sequences, complete cDNA support.
NEM-sensitive factore NSF, contains NSF and cdc48 domains
lipase/seterase/thioesterase family active site
No EST evidence, but very strong matches to this gene in several other organisms.
There is no EST support yet for this gene, but there is a lot of hits to other threonine aldolases.; hypothetical protein similar to l-allo-threonine aldolase
based on sequence similarity to mammalian thiolases and presence of thiolase domain and Phaeodactylum EST support; hydroxyacyl-coenzyme a dehydrogenase
based on EST support from Thalassiosira weissflogii and Phaeodactylum; putative protein of unknown function
Very distant similarity to dihydrofolate reductase; hypothetical gene
Phytoene dehydrogenase (phytoene desaturase) is an enzyme of carotenoid biosynthesis that converts phytoene into zeta-carotene via the symmetrical introduction of two double bonds at the C-11 and C-11' positions of phytoene. The sequence of phytoene dehydrogenase from bacteria (gene crtI or carC) and fungi (gene AL-1) are not related to that from cyanobacteria and plants but is evolutionary related to that of other enzymes of carotenoid biosynthesis, methoxyneurosporene dehydrogenase (gene crtD) and carotenoid isomerase. There are two glycine-rich conserved regions, both of which probably play a role in the binding of either FAD or NAD. The first conserved region is in the N-terminal section while the second one is in the C-terminal section.; hypothetical protein similar to phytoene dehydrogenase
Reaction catalyzed:D-glucose 6-phosphate = D-fructose 6-phosphate. Note, also catalyzes the anomerization of D-glucose 6-phosphate.; putative
Identified by similarity to known sequences. A member of the valine/leucine/isoleucein biosynthesis pathway.
based on sequence similarity to Dictyostelium glycosyltransferase; putative protein
No similarity to known sequences; hypothetical gene
Involved in DNA replication, one of four copies, most similar to animal homologues
Proteins that bind cyclic nucleotides (cAMP or cGMP) share a structural domain of about 120 residues [1, 2, 3]. The best studied of these proteins is the prokaryotic catabolite gene activator (also known as the cAMP receptor protein) (gene crp) where such a domain is known to be composed of three alpha-helices and a distinctive eight-stranded, antiparallel beta-barrel structure.; hypothetical protein kinase with cyclic nucleotide binding domain
similarity to genes encoding ribosome-associated p40 protein. Belongs to S2P family of ribosomal proteins. Location appears to be cytoplasmic. Ribosomal S2 proteins have been shown to belong to a family that includes 40S ribosomal subunit 40kD proteins and putative laminin-binding proteins.
based on sequence similarity; putative protein with similarity to nuclear protein and splicing factor 3B subunit
Possibly from drug efflux ABC transporter family
photosystem II reaction center M protein, plastid precursor
photosystem II reaction center M protein, contains bipartite plastid targeting presequence with conserved motif at signal peptide cleavage site
unc-18-like, N-terminal sequence unknown; related to unc-18, hunc-18
Supported by complete cDNA and good similarity to database sequences. Citric acid cycle enzyme.
Zinc finger protein similarity, PHD motif, DNA binding, transcription factor; zinc finger protein similarity, PHD motif, DNA binding, transcription factor
addition to previous annotation: N-terminus (extended, see gene model comment) contains putative ER signal peptide predicted by SignalP (probability 0.996; cleavage site between pos. 21 and 22: CGA-YS) followed by putative chloroplast transit peptide predicted by TargetP (probability 0.717, length 22 aa). Protein is putatively chloroplast targeted.
presence of PDZ domain and sterol regulatory element binding protein suggests that may encode mettaloprotease required for lipid biosynthesis; putative protein with sequence similarity to conserved hypothetical from cyanobacteria
Putative protein of unknown function, showing some similarities to FAP7 yeats nuclear protein involved in oxidative stress response, strong similarioty to CGD7_HUMAN Protein CGI-137 (Protein AD-004) (model%: 92, hit%: 97, score: 463, %id: 48) [Homo sapiens]; some EST support; putative protein of unknown function, showing some similarity to FAP7 yeats nuclear protein involved in oxidative stress response
protein of unknown function with no similarity to knon proteins, supported by 3 thaps cDNAs
based on sequence similarity to bacterial hypothetical proteins and EST support; hypothetical protein
supported by T. weissflogii EST; putative protein of unknown function that contains an RNA binding domain
putative protein of unknown function containing a TB2/DP1 domain; putative protein of unknown function containing a TB2/DP1 domain
Strong similarity to other organisms (50% amino acid identity); contains conserved phenylalanyl-tRNA synthetase beta subunit archae/euk cytosolic domain (IPR004531); function: catalyse the attachment of an amino acid to its cognate transfer RNA molecule in a highly specific two-step reaction.
probable microsomal very long chain fatty acid elongase
May catalyse the carboxyl-end addition of 2 carbons to long chain fatty acids. Microsomal membrane bound.
Putative protein similar to mitochondrial uncoupling protein (UCP), gi|13537347|dbj|BAB40658.1| uncoupling protein [Oryza sativa (japonica cultivar-group)] (model%: 93, hit%: 88, score: 374, %id: 33) [Oryza sativa (japonica cultivar-group)]; putative protein similar to mitochondrial uncoupling protein
Putative protein of unknown function, containing leucine-rich repeats; some similarities to gi|15623999|dbj|BAB68053.1| (AP003453) putative brassinosteroid-insensitive protein BRI1 [Oryza sativa (japonica cultivar-group)] (model%: 84, hit%: 16, score: 340, %id: 40) [Oryza sativa (japonica cultivar-group)]; EST support; putative protein of unknown function, containing leucine-rich repeats
MYB DNA binding protein/ transcription factor-like protein
Member of MYB DNA binding protein/ transcription factor family.
putative chitinase; hypothetical protein
The aminoacyl-tRNA synthetases catalyse the attachment of an amino acid to itscognate transfer RNA molecule in a highly specific two-step reaction. Arginyl tRNA synthetase is a class I aminoacyl-tRNA synthetases. In reactions catalysed by the class I aminoacyl-tRNA synthetases, the aminoacyl group is coupled to the 2'-hydroxylof the tRNA, while, in class II reactions, the 3'-hydroxyl site is preferred.
probable peptide methionine sulfoxide reductase
Probable peptide methionine sulfoxide reductase (methionine sulfoxide protein reductase) (methionine sulfoxide peptide reductase) (protein methionine sulfoxide reductase) (MetO-peptide reductase) (peptide methionine sulfoxide reductase) (protein-L-methionine:oxidized-thioredoxin S-oxidoreductase); similar to syn:sll1394 msrA, pms; peptide methionine sulfoxide reductase [SP:MSA1_SYNY3] custom_KEGG (model%: 100, hit%: 83, score: 479, %id: 49) [Synechocystis sp. PCC 6803]; strong EST support
Probable nuceloside diphosphate kinase (NDK) (NDPK) (NDP kinase), similar to gi|12230353|sp|Q9Y5B8|NDK7_HUMAN Nucleoside diphosphate kinase 7 (NDK 7) (NDP kinase 7) (nm23-H7) (model%: 84, hit%: 92, score: 453, %id: 33) [Homo sapiens]
Match to EST from Phaeodactylum library. Excellent alignments to threonyl-tRNA synthetase genes from Arabidopsis and Nostoc.
FUNCTION TRANSPORT OF CARNITINE OR ACYLCARNITINE FROM THE CYTOSOL TO THE MITOCHONDRIAL MATRIX (BY SIMILARITY). SUBCELLULAR LOCATION INTEGRAL MEMBRANE PROTEIN. MITOCHONDRIAL INNER MEMBRANE (BY SIMILARITY). DOMAIN COMPOSED OF THREE HOMOLOGOUS DOMAINS. BELONGS TO THE MITOCHONDRIAL CARRIER FAMILY
ubiquinol-cytochrome-c reductase-like protein
This sequence contains a Pfam subunit of the ubiquinol-cytochrome-c reductase complex which is not directly involved in electron transfer, but has a role in assembly of the complex.
Good hits to other transporters and pfam model.
Has greatest similarity to 3-hydroxyisobutyryl-coenzyme-A hydrolase. Partial cDNA support.; unknown protein
Identification based on sequence similarity
Probable aspartyl aminopeptidase (asp-apase) (aspartate aminopeptidase) similar to At5g60160-68299.m05969 F15L12.1 aspartyl aminopeptidase - like protein aspartyl aminopeptidase, Homo sapiens, EMBL:AF005050. (model%: 92, hit%: 95, score: 1038, %id: 46) [Arabidopsis thaliana]; EST support
para-aminobenzoate synthase and glutamine amidotransferase, a bifunctional enzyme-like protein
The gene model contains putative ER signal peptide at its N-terminus as predicted by SignalP (probability 0.660; cleavage site between pos. 16 and 17: TEA-WV) followed by putative chloroplast transit peptide predicted by TargetP (probability 0.638; length 54 aa). Protein is putatively chloroplast targeted. When extended of 25 aa at the N-terminus, the extension contains putative mitochondrial transit peptide as predicted by TargetP (probability 0.867; length 27 aa). Possible alternative start of translation. Dual targeting possible.
ubiquitin activating enzyme 1 (UBA1) (E1) identical to GB:U80808 (model%: 100, hit%: 93, score: 1872, %id: 42) [Arabidopsis thaliana]
No similarity to any known sequences.; hypothetical gene
probable uracil phosphoribosyltransferase
Probable uracil phosphoribosyltransferase (UMP pyrophosphorylase) (UPRTase), very similar to gi|6647898|sp|O65583|UPP_ARATH Uracil phosphoribosyltransferase (model%: 100, hit%: 95, score: 350, %id: 39) [Arabidopsis thaliana]
member of fucoxanthin chlorophyll a/c family, lhca clade
High sequence relatedness to red algal sequences
fucoxanthin chl a/c light-harvesting protein
supported by several cDNAs; conserved protein of unknown function
Probable glactonolatone dehydrogenase (l-galactono-gamma-lactone dehydrogenase) (gldhase) (l-galactono-gamma-lactone - ferricytochrome c oxidoreductase); catalyses the final step in ascobic acid synthesis; similar to gi|7488598|pir||T14463 galactonolactone dehydrogenase - broccoli (model%: 84, hit%: 82, score: 943, %id: 40) [Brassica oleracea var. botrytis]; good EST support
Belongs to a class of hydrolases that acts on ester bonds, also considred to be phosphoric monoester hydrolases.Catalyzes the reaction A 5'-ribonucleotide + H2O = a ribonucleoside + phosphate.
Central region of enzyme has high similarity to aldehyde dehydrogenases
Protein phosphatase 2C (PP2C) is one of the four major classes of mammalian serine/threonine specific protein phosphatases; shows broad substrate specificity and is dependent on divalent cations; contains conserved PP2C domain; putative protein phosphatase
molecular motor involved in microtubule-based transport
Putative protein similar to cytosine deaminases; e.g. gi|18562361|ref|XP_059727.2| (XM_059727) similar to dJ20N2.1 (novel protein similar to yeast and bacterial cytosine deaminase) [Homo sapiens] (model%: 100, hit%: 89, score: 360, %id: 45) [Homo sapiens]; weak EST support; putative protein similar to cytosine deaminases
receiver domain of response regulator from bacterial two component system
putative receiver domain of response regulator from bacterial two component system.
cyclophilin-type peptidyl-prolyl cis-trans isomerase
PPIases are enzymes that accelerate protein folding by catalyzing the cis-trans isomerization of proline imidic peptide bonds in oligopeptides. These proteins commonly belong to a family of isozymes. This is the second member of the PPI family. Synonyms are cyclophillins, cyclosporing A-binding proteins. In vertebrates, cyclophilins bind to the imuunosuppressive drug cyclosporing A (CSA).
based on sequence similarity, presence of defining domains, and EST support from T. weissflogii
Good support from EST evidence and hits to domains from hsp groupings. Decent similarity to TRX from other organisms.
hypothetical protein containing similarity to inositol 1,3,4-trisphosphate 5/6-kinase
contains partial conserved TGS domain, a small domain that consists of 50 amino acid residues and is predicted to possess a predominantly beta-sheet structure. There is no direct information on the functions of the TGS domain, but its presence in two types of regulatory proteins (the GTPases and guanosine polyphosphate phosphohydrolases/synthetases) suggests a ligand (most likely nucleotide)-binding, regulatory role [PMID: 10447505]. Also contains a metal dependent phosphohydrolase domain (HD domain)
Putative protein of unknown function containing a lipase domain, some similarities to gi|21287838|gb|EAA00159.1| (AAAB01008986) agCP9411 [Anopheles gambiae str. PEST] (model%: 84, hit%: 49, score: 369, %id: 31) [Anopheles gambiae str. PEST]; EST support; putative protein of unknown function containing a lipase domain
chronic renal failure gene protein; G protein-binding protein
EST evidence as well as Pfam and InterPro domain hits.; hypothetical protein similar to nadph-dependent oxidoreductases, such as cytochrome P450 reductase
Involved in heat shock response, protein folding and protein transport. Likely a cytoplasmatic isoform
Probable papain cysteine protease, similar to gi|12585209|sp|Q9WUU7|CATZ_MOUSE Cathepsin Z precursor (model%: 74, hit%: 73, score: 441, %id: 39) [Mus musculus]; considerable EST support
poorly aligned but recognisable, no EST support, clearly most similar to a homologue from a cryptomonad, thus indicating secondary gene transfer from the nucleomorph to the diatom nucleus
putative GTP binding protein, supported by cDNA
putative inorganic pyrophosphatase of the vacuolar H+-tranlocating type based on presence of defining domain, sequence similiality and strong EST support from Phaeodactylum
eucarytic translation initiation factor 5A
most similar to Phytophtora and higher plants, less similar to G theta, i.e. red algal version is gone
contains conserved inositol monophosphatase domain (IPR000760); good supporting EST data; an enzyme of the inositol phosphate second messenger signalling pathway
Excellent hits to ABC transporters and interpro domains. Membrane domains clearly present.
Has the strongest similarity to an acetyl-CoA carboxylase alpha subunit, but only one instance of this. Strong sequence similarity in central portion of the gene. Partial Phaeodactylum cDNA support.
HSF40,Contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor; HSF40, contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor
similar to TIM22, translocase of inner mitochondrial membrane
Hypothetical protein, possible procollagen-proline,2-oxoglutarate-4-dioxygenase, prolyl dioxygenase, also possible Fe(II) dioxygenase; hypothetical protein
converts uroporphyrinogen III to hydroxymethylbilane. On heme/chlorophyll biosynthetic pathway. Has signal sequence when edited. Best match to cyanobacteria. One intron, no EST support
HSF41, Contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor; HSF41, contains heat shock transcription factor DNA-binding domain, DNA binding, transcription factor
homeobox protein similarity, DNA binding, transcription factor; homeobox protein similarity, DNA binding, transcription factor
The gene shows moderate similarity to Chk2, a serine/threonine protein kinase, that is involved in the cell cycle. It is thought to repress cdc25 and activate p53.
TPS_110331 is weakly homologus to proteins that contain ankyrin repeats in animals such asHomo sapien, Drosophila, C. elegans, Anopheles sp., Rattus sp, and Mus musculus, as wellas the Fowlpox virus. Ankyrin repeats are tandemly repeated modules of about 33 amino acids. They occur in a largenumber of functionally diverse proteins mainly from eukaryotes. Many ankyrin repeat regions are known to function as protein-protein interaction domains.
Contains homology to protein kinase regulatory proteins and cyclic nucelotide binding domain
contains conserved serine threonine kinase domain (IPR002290) and tyrosine kinase domain (IPR001245) and protein kinase c-term domain (IPR000961). Aligns with PKA in other organisms (46% identitiy ovr 300 amino acids). Supporting Phaeodactylum tricornutum EST data.; putative protein kinase
based on sequence similarity to hypothetical proteins from bacteria; putative protein of unknown function
Protein prenyltransferases catalyze the transfer of an isoprenyl moiety to a cysteine four residues from the C-terminus of several proteins. They are heterodimeric enzymes consisting of alpha and beta subunits. The alpha subunit is thought to participate in a stable complex with the isoprenyl substrate; the beta subunit binds the peptide substrate. Both the alpha and beta subunit show repetitive sequence motifs. These repeats have distinct structural and functional implications and are unrelated to each other. Known protein prenyltransferase alpha subunits are the mammalian protein farnesyltransferase alpha subunit, yeast protein RAM2, a protein farnesyltransferase alpha subunit and yeast protein BET4, a protein geranylgeranyltransferase alpha subunit.
Putative protein of unknown function containing leucine-rich repeats; similar to gi|22136012|gb|AAM91588.1| (AY128385) putative disease resistance protein [Arabidopsis thaliana] (model%: 86, hit%: 24, score: 301, %id: 31) [Arabidopsis thaliana]; putative protein of unknown function containing leucine-rich repeats
may be involved in tyrosine biosynthesis
[FUNCTION] BINDS MEDIUM- AND LONG-CHAIN ACYL-COA ESTERS WITH VERY HIGH AFFINITY AND MAY FUNCTION AS AN INTRACELLULAR CARRIER OF ACYL-COA ESTERS (BY SIMILARITY). [SIMILARITY] BELONGS TO THE ACBP FAMILY.
udp-n-acetylglucosamin-dolichyl-phosphate : n-acetylglucosamin-phosphate transferase
involved in N-glycan biosyntesiscontains glycosyltransferase domain
RP3A,-like protein to dna-directed RNA polymerase II third largest subunit
RP3A, homolog to DNA-directed RNA polymerase II, third largest subunit